RT Journal Article
SR Electronic
T1 Fast and accurate <em>de novo</em> genome assembly from long uncorrected reads
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 068122
DO 10.1101/068122
A1 Robert Vaser
A1 Ivan Sović
A1 Niranjan Nagarajan
A1 Mile Šikić
YR 2016
UL http://biorxiv.org/content/early/2016/08/05/068122.abstract
AB The assembly of long reads from Pacific Biosciences and Oxford Nanopore Technologies typically requires resource intensive error correction and consensus generation steps to obtain high quality assemblies. We show that the error correction step can be omitted and high quality consensus sequences can be generated efficiently with a SIMD accelerated, partial order alignment based stand-alone consensus module called Racon. Based on tests with PacBio and Oxford Nanopore datasets we show that Racon coupled with Miniasm enables consensus genomes with similar or better quality than state-of-the-art methods while being an order of magnitude faster.Racon is available open source under the MIT license at https://github.com/isovic/racon.git.